Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3669133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 19
Found at i:2909030 original size:30 final size:30
Alignment explanation
Indices: 2908996--2909067 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2908986 CTTGAGGCAG
*
2908996 TTTCTTTGGAAACACAA-ATCTTTGAGTC-T
1 TTTCTTT-GAAACAAAACATCTTTGAGTCGT
2909025 ATTTCTCTTGAAACAAAACCATCTTTGAGTCGT
1 -TTTCT-TTGAAACAAAA-CATCTTTGAGTCGT
2909058 TTTC-TTGAAA
1 TTTCTTTGAAA
2909068 TGAATTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
30 19 0.51
31 2 0.05
32 15 0.41
33 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTCTTTGAAACAAAACATCTTTGAGTCGT
Found at i:2909053 original size:132 final size:129
Alignment explanation
Indices: 2908815--2909067 Score: 298
Period size: 132 Copynumber: 1.9 Consensus size: 129
2908805 TGAGAAAAAA
* * * * *
2908815 ATCTTTGAGTTTGTTTCATTTGAAACAAATTTTGTCTCTCGAGACAATTTCTTTTGAGAAAAGTC
1 ATCTTTGAGATCGTTTCATTTGAAACAAATTTTGTCTCTCGAGACAATTTCTTTGGAAAAAAATC
*
2908880 CTTGAGTCTGTTTCTTTGGAAACAAAATTTACCATCTTTGAGTCTGTTTCCCTTGAAACAAAACA
66 CTTGAGTCTATTTCTTTGGAAACAAAA--TACCATCTTTGAGTC-GTTT-CCTTGAAACAAAACA
2908945 AAC
127 AAC
* * *
2908948 ATCTTTGAGATCGTTTCA-TTGAAACAAATTTTGTCTCCCTTGAGGCAGTTTCTTTGGAAACACA
1 ATCTTTGAGATCGTTTCATTTGAAACAAATTTTGTCT--CTCGAGACAATTTCTTTGGAAA-A-A
* *
2909012 AATCTTTGAGTCTATTTCTCTT-GAAAC-AAA-ACCATCTTTGAGTCGTTTTCTTGAAA
62 AATCCTTGAGTCTATTTCT-TTGGAAACAAAATACCATCTTTGAGTCGTTTCCTTGAAA
2909068 TGAATTTTGT
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
130 7 0.07
131 4 0.04
132 32 0.31
133 16 0.15
134 17 0.16
135 4 0.04
136 22 0.21
137 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (129 bp):
ATCTTTGAGATCGTTTCATTTGAAACAAATTTTGTCTCTCGAGACAATTTCTTTGGAAAAAAATC
CTTGAGTCTATTTCTTTGGAAACAAAATACCATCTTTGAGTCGTTTCCTTGAAACAAAACAAAC
Found at i:2909096 original size:96 final size:97
Alignment explanation
Indices: 2908912--2909133 Score: 258
Period size: 96 Copynumber: 2.3 Consensus size: 97
2908902 CAAAATTTAC
*
2908912 CATCTTTGAGTCTGTTTCCCTTGAAACAAAACAAACATCTTTGAGATCGTTTCATTGAAACAAAT
1 CATCTTTGAGTCTGTTTCTCTTGAAACAAAAC--ACATCTTTGAGATCGTTTCATTGAAACAAAT
* * *
2908977 TTTGTCTCCCTTGAGGCAGTTTCT-TTGGAAACA-
64 TTTGTCTCCCTTAAGACAATTTCTCTT-GAAACAT
* **
2909010 CAAATCTTTGAGTCTATTTCTCTTGAAACAAAAC-CATCTTTGAG-TCGTTTTC-TTGAAATGAA
1 C--ATCTTTGAGTCTGTTTCTCTTGAAACAAAACACATCTTTGAGATCG-TTTCATTGAAACAAA
* *
2909072 TTTTGTCTCTCTTAAGACAATTTCTCTTGAAGCAT
63 TTTTGTCTCCCTTAAGACAATTTCTCTTGAAACAT
2909107 CATCTTTGAGT-TGGTTTCTCTTGAAAC
1 CATCTTTGAGTCT-GTTTCTCTTGAAAC
2909134 CATTATCCTT
Statistics
Matches: 108, Mismatches: 10, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
94 1 0.01
95 23 0.21
96 37 0.34
97 17 0.16
98 1 0.01
100 29 0.27
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (97 bp):
CATCTTTGAGTCTGTTTCTCTTGAAACAAAACACATCTTTGAGATCGTTTCATTGAAACAAATTT
TGTCTCCCTTAAGACAATTTCTCTTGAAACAT
Found at i:2909396 original size:131 final size:131
Alignment explanation
Indices: 2909174--2909526 Score: 519
Period size: 131 Copynumber: 2.7 Consensus size: 131
2909164 ATCACGTATG
* * *
2909174 AACTGTGTTATCCCCCGACCATACCTCCTTATCACGTAGGAGCCGTGTCACCCCTAGATAACCAG
1 AACTGTGTCATCCCCTGACCATACCTCCTTATCACGTAGGAGCTGTGTCACCCCTAGATAACCAG
* * * *
2909239 TTTTCATGATCACGTAGGAACCGTGTTATCATCCCTAAATATGGCATACCATCCTCATCATGTAG
66 TTGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATACCATCCTCATCATGTAG
2909304 A
131 A
* *
2909305 AACTGTGTCATCCCCTGACCATACCTCCTTATCACGTAGGAGTTGTGTCACCCTTAGATAACCAG
1 AACTGTGTCATCCCCTGACCATACCTCCTTATCACGTAGGAGCTGTGTCACCCCTAGATAACCAG
* * *
2909370 TTGTCCTCATCATGTAGGAACCGTGTTATCATCCCTAAAGATGGCATGCCATCCTTATCATGTAG
66 TTGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATACCATCCTCATCATGTAG
*
2909435 G
131 A
** * * *
2909436 AACCATGTCATCCCCTGACCAGACCTCCTCATCACGTAGGAGCTGTGTCACCCCTAAATAACCTA
1 AACTGTGTCATCCCCTGACCATACCTCCTTATCACGTAGGAGCTGTGTCACCCCTAGATAACC-A
*
2909501 -TCGTCCTCATCACGTAGGAACCGTGT
65 GTTGTCCTCATCACGTAGGAACCGTGT
2909527 CATCCACCAA
Statistics
Matches: 199, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 198 0.99
132 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (131 bp):
AACTGTGTCATCCCCTGACCATACCTCCTTATCACGTAGGAGCTGTGTCACCCCTAGATAACCAG
TTGTCCTCATCACGTAGGAACCGTGTTATCATCCCTAAAGATGGCATACCATCCTCATCATGTAG
A
Found at i:2909775 original size:21 final size:19
Alignment explanation
Indices: 2909737--2909782 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2909727 AATTAATCCT
2909737 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
2909757 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
2909778 A-TAAT
1 ACTAAT
2909783 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:2918417 original size:21 final size:21
Alignment explanation
Indices: 2918340--2918417 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
2918330 CATATGAAAT
* *
2918340 TTGTCCCGAAGAACTACTGTA
1 TTGTCCCGAAGGACCACTGTA
* *
2918361 TTGTCCCGAAAGACCGCTGTA
1 TTGTCCCGAAGGACCACTGTA
* *
2918382 TTATCCCGAATGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
2918403 TTGTCCCGAAGGACC
1 TTGTCCCGAAGGACC
2918418 TATGAAACCC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:2919283 original size:46 final size:46
Alignment explanation
Indices: 2919227--2919331 Score: 108
Period size: 46 Copynumber: 2.3 Consensus size: 46
2919217 CCCTGTCTAT
* ** *
2919227 GGTATAGATACCCTGTTGACATTCT-TAAATTTTTATC-TTCAGGA-GG
1 GGTATTGATACCCTACTGACATTCTAT-AA-TTTT-TCGTTCAAGAGGG
* *
2919273 GGTATTGATACCATACTGACGTTCTATAATTTTTCGTTCAAGAGGG
1 GGTATTGATACCCTACTGACATTCTATAATTTTTCGTTCAAGAGGG
2919319 GGTATTGATACCC
1 GGTATTGATACCC
2919332 CTTCATAGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
44 2 0.04
45 10 0.20
46 36 0.73
47 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (46 bp):
GGTATTGATACCCTACTGACATTCTATAATTTTTCGTTCAAGAGGG
Found at i:2919471 original size:22 final size:19
Alignment explanation
Indices: 2919430--2919472 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
2919420 TCCTTTACAT
2919430 ATACTTAACTCATATACTC
1 ATACTTAACTCATATACTC
2919449 ATACTTGAACTCATTAATACTC
1 ATACTT-AACTCA-T-ATACTC
2919471 AT
1 AT
2919473 TCAATACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 6 0.29
21 1 0.05
22 8 0.38
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACTTAACTCATATACTC
Found at i:2922760 original size:21 final size:19
Alignment explanation
Indices: 2922722--2922767 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
2922712 AATTAATCCT
2922722 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
2922742 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
2922763 A-TAAT
1 ACTAAT
2922768 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:2924399 original size:3 final size:3
Alignment explanation
Indices: 2924391--2924427 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
2924381 TCTCGAAAAA
2924391 TAT TAT TA- TATT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
2924428 GTAGTTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2928633 original size:3 final size:3
Alignment explanation
Indices: 2928627--2928689 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
2928617 TTTTTACTCA
2928627 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2928675 TAT TAA TA- TAT TAT T
1 TAT TAT TAT TAT TAT T
2928690 TAAAATTACA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2930026 original size:18 final size:17
Alignment explanation
Indices: 2929991--2930030 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2929981 TGTTATATAA
2929991 TAAATAAATATTTATTT
1 TAAATAAATATTTATTT
2930008 TAAATAAAT-TATTATTT
1 TAAATAAATAT-TTATTT
*
2930025 TTAATA
1 TAAATA
2930031 TCGAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAAATATTTATTT
Found at i:2930705 original size:28 final size:27
Alignment explanation
Indices: 2930674--2930727 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
2930664 TTTTTCTTTC
* *
2930674 TTTTCAAAATTTTTATATTTATTTATTA
1 TTTTCAAAATATTTATATGT-TTTATTA
*
2930702 TTTTCATAATATTTATATGTTTTATT
1 TTTTCAAAATATTTATATGTTTTATT
2930728 TGCAAGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCAAAATATTTATATGTTTTATTA
Found at i:2941354 original size:10 final size:10
Alignment explanation
Indices: 2941339--2941399 Score: 61
Period size: 10 Copynumber: 5.8 Consensus size: 10
2941329 ATGCTTGAAG
2941339 AAAAGAAAGA
1 AAAAGAAAGA
2941349 AAAAGAAAAGA
1 AAAAG-AAAGA
*
2941360 AAAGAAAAAGAA
1 AAA-AGAAAG-A
*
2941372 AAAAGAGAGA
1 AAAAGAAAGA
2941382 AAAA-AACAGA
1 AAAAGAA-AGA
2941392 AAAAGAAA
1 AAAAGAAA
2941400 AAGGGGGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 1 0.02
10 18 0.43
11 18 0.43
12 5 0.12
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:2941355 original size:6 final size:6
Alignment explanation
Indices: 2941344--2941402 Score: 61
Period size: 6 Copynumber: 9.7 Consensus size: 6
2941334 TGAAGAAAAG
2941344 AAAGAA AAAG-A AAAG-A AAAGAA AAAGAAA AAAGAGA GAAA-AA AACAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA AAAGA-A -AAAGAA AA-AGAA
2941393 AAAGAA AAAG
1 AAAGAA AAAG
2941403 GGGGGGTCAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
5 12 0.26
6 20 0.43
7 12 0.26
8 3 0.06
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:2941359 original size:20 final size:20
Alignment explanation
Indices: 2941336--2941400 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
2941326 TATATGCTTG
2941336 AAGAAAAGAAAGAAAAAGAA
1 AAGAAAAGAAAGAAAAAGAA
2941356 AAGAAAAGAAAAAGAAAAA-AGA
1 AAGAAAAG--AAAGAAAAAGA-A
* *
2941378 GAGAAAAAAACAGAAAAAGAA
1 AAGAAAAGAA-AGAAAAAGAA
2941399 AA
1 AA
2941401 AGGGGGGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 10 0.27
21 10 0.27
22 17 0.46
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (20 bp):
AAGAAAAGAAAGAAAAAGAA
Found at i:2941383 original size:33 final size:33
Alignment explanation
Indices: 2941339--2941402 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
2941329 ATGCTTGAAG
2941339 AAAAGAAAGAAAAAGAAAAG-AAAAGAAAAAGAA
1 AAAAGAAAGAAAAA-AAAAGAAAAAGAAAAAGAA
* *
2941372 AAAAGAGAGAAAAAAACAGAAAAAGAAAAAG
1 AAAAGAAAGAAAAAAAAAGAAAAAGAAAAAG
2941403 GGGGGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (33 bp):
AAAAGAAAGAAAAAAAAAGAAAAAGAAAAAGAA
Found at i:2941392 original size:27 final size:25
Alignment explanation
Indices: 2941339--2941401 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 25
2941329 ATGCTTGAAG
2941339 AAAAGAAAGAAAAAGAAAAGAAAAGA
1 AAAAGAAA-AAAAAGAAAAGAAAAGA
2941365 AAAAGAAAAAAGAGAGAAAA-AAACAGA
1 AAAAGAAAAAA-A-AGAAAAGAAA-AGA
2941392 AAAAGAAAAA
1 AAAAGAAAAA
2941402 GGGGGGGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
25 3 0.09
26 12 0.35
27 19 0.56
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (25 bp):
AAAAGAAAAAAAAGAAAAGAAAAGA
Found at i:2942679 original size:83 final size:83
Alignment explanation
Indices: 2942540--2943091 Score: 921
Period size: 83 Copynumber: 6.7 Consensus size: 83
2942530 AAACATTAAA
* *
2942540 TGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
1 TGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
2942604 CAGAACTAATCATTGAATT
65 CAGAACTAATCATTGAATT
2942623 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
2942688 AGAACTGATTATTGAATT
66 AGAACTAATCATTGAATT
* *
2942706 TGGAATATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
2942770 CAGAACCAATCATTGAATT
65 CAGAACTAATCATTGAATT
*
2942789 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
2942854 AGAACTAATCATTGAATT
66 AGAACTAATCATTGAATT
2942872 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
2942937 AGAACTGATTATTGAATT
66 AGAACTAATCATTGAATT
* *
2942955 TGGAATATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
* *
2943019 CATAACCAATCATTGAATT
65 CAGAACTAATCATTGAATT
*
2943038 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGA
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
2943092 AGATGAATTT
Statistics
Matches: 439, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
82 3 0.01
83 434 0.99
84 2 0.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (83 bp):
TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACTAATCATTGAATT
Found at i:2942978 original size:249 final size:249
Alignment explanation
Indices: 2942540--2943091 Score: 1061
Period size: 249 Copynumber: 2.2 Consensus size: 249
2942530 AAACATTAAA
*
2942540 TGGAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
1 TGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
2942604 CAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
65 CAGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAG
2942669 TTATCTGATCTGGTTGGACAGAACTGATTATTGAATTTGGAATATGAATGTGCTCATAGCATCTT
130 TTATCTGATCTGGTTGGACAGAACTGATTATTGAATTTGGAATATGAATGTGCTCATAGCATCTT
2942734 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
195 CTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
2942789 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
2942854 AGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
66 AGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
2942919 TATCTGATCTGGTTGGACAGAACTGATTATTGAATTTGGAATATGAATGTGCTCATAGCATCTTC
131 TATCTGATCTGGTTGGACAGAACTGATTATTGAATTTGGAATATGAATGTGCTCATAGCATCTTC
*
2942984 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACCAATCATTGAATT
196 TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
*
2943038 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGA
1 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
2943092 AGATGAATTT
Statistics
Matches: 299, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
248 1 0.00
249 298 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (249 bp):
TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAC
AGAACTAATCATTGAATTTGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTGGACAGAACTGATTATTGAATTTGGAATATGAATGTGCTCATAGCATCTTC
TGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAATT
Found at i:2943070 original size:29 final size:29
Alignment explanation
Indices: 2943038--2943122 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
2943028 TCATTGAATT
2943038 TGGAAGATGAATTTGCCAATAGCATCTTC
1 TGGAAGATGAATTTGCCAATAGCATCTTC
* * *
2943067 TGGAAG-TG---TT--C-TTTG-AGTCATC
1 TGGAAGATGAATTTGCCAATAGCA-TCTTC
2943089 T-GAAGATGAATTTGCCAATAGCATCTTC
1 TGGAAGATGAATTTGCCAATAGCATCTTC
2943117 TGGAAG
1 TGGAAG
2943123 TGTTCTTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 20
0.61 0.09 0.30
Matches are distributed among these distances:
21 5 0.12
22 9 0.22
23 1 0.03
25 4 0.10
27 1 0.03
28 9 0.22
29 11 0.28
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (29 bp):
TGGAAGATGAATTTGCCAATAGCATCTTC
Found at i:2943115 original size:50 final size:50
Alignment explanation
Indices: 2943040--2943139 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
2943030 ATTGAATTTG
2943040 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCT
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCT
*
2943090 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCT
2943140 AATCTGGTTG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (50 bp):
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCT
Found at i:2943199 original size:133 final size:133
Alignment explanation
Indices: 2942973--2943224 Score: 416
Period size: 133 Copynumber: 1.9 Consensus size: 133
2942963 GAATGTGCTC
* *
2942973 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACCAATCATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
*
2943038 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGAAGATGAATTTG
66 TGGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGAAGATGAATTTG
2943103 CCA
131 CCA
** *
2943106 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACTGATTATTGAATT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
* *
2943171 TGGAATATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGA
66 TGGAAGATGAATGTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGA
2943225 TCTGGTTTGG
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
133 109 0.99
134 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (133 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAACCAATCATTGAATT
TGGAAGATGAATGTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTCATCTGAAGATGAATTTG
CCA
Found at i:2944156 original size:113 final size:113
Alignment explanation
Indices: 2943958--2944469 Score: 754
Period size: 113 Copynumber: 4.5 Consensus size: 113
2943948 AATATATCAT
*
2943958 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAA
1 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
2944023 GTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTCATCAAA
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAA
2944071 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
2944136 GTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-TGAATTCATCAAA
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAA
* * *
2944183 TTGATGGATTAGCTTTTCCAGAGAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAA
1 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
* *
2944248 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATC-AC
63 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAA
*
2944298 TTGA-GGATTAT-TTTTGCCAGAGAAAGTTCATAATGAGAAGAA-AC-TCTGAAGAAGGAAGAAG
1 TTGATGGATTATCTTTT-CCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* * *
2944359 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TGCTCAA-TCTAT-TAC
64 AAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-CTGAATTC-ATCAAA
* * * *
2944408 TTGATGGGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 TTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
2944470 GAAAGTTAAT
Statistics
Matches: 371, Mismatches: 15, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
109 3 0.01
110 62 0.17
111 32 0.09
112 58 0.16
113 116 0.31
114 13 0.04
115 77 0.21
116 10 0.03
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (113 bp):
TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAA
Found at i:2944361 original size:228 final size:225
Alignment explanation
Indices: 2943958--2944469 Score: 743
Period size: 225 Copynumber: 2.3 Consensus size: 225
2943948 AATATATCAT
* *
2943958 TTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAA
1 TTGATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
2944023 GTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTCATCAAATTGATGGATTATCTTTT
66 GTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAATTGATGGATTATCTTTT
*
2944088 CCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
131 CCAGAGAAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
2944153 TTTGTTCAACCTTTTATTGAATTCATCAAA
196 TTTGTTCAACCTTTTATTGAATTCATCAAA
* *
2944183 TTGATGGATTAGCTTTTCCAGAGAGGTTCATAATGAGAAGAACTCATCATCTGAAGGAGGAAGAA
1 TTGATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAA
* *
2944248 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATC-ACTTGA-GGATTAT-T
63 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAATTGATGGATTATCT
2944310 TTTGCCAGAGAAAGTTCATAATGAGAAGAA-AC-TCTGAAGAAGGAAGAAGAAGTTCATAATGAG
128 TTT-CCAGAG-AAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * *
2944373 AAGAATTTGTTCAACCTTTT-TGCTCAA-TCTAT-TAC
191 AAGAATTTGTTCAACCTTTTAT--TGAATTC-ATCAAA
* ** * *
2944408 TTGATGGGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 TTGATGGATTAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
2944470 GAAAGTTAAT
Statistics
Matches: 260, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
223 16 0.06
224 2 0.01
225 117 0.45
226 37 0.14
227 25 0.10
228 63 0.24
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (225 bp):
TTGATGGATTAGCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTCATCAAATTGATGGATTATCTTTT
CCAGAGAAGTTCATAATGAGAAGAACACATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
TTTGTTCAACCTTTTATTGAATTCATCAAA
Found at i:2944498 original size:38 final size:38
Alignment explanation
Indices: 2944439--2944525 Score: 133
Period size: 38 Copynumber: 2.3 Consensus size: 38
2944429 AGAAAGTTCA
2944439 TAATGAGAAG-AACTCATCTGAAGAAAGAAG-AGAAAGT
1 TAATGAGAAGAAACTCATCTGAAGAAAGAAGAAG-AAGT
*
2944476 TAATGAGAAGAAACTCATCTGAAGAAGGAAGAAGAAGT
1 TAATGAGAAGAAACTCATCTGAAGAAAGAAGAAGAAGT
*
2944514 TCATGAGAAGAA
1 TAATGAGAAGAA
2944526 TTTGTTCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 10 0.22
38 34 0.74
39 2 0.04
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.16
Consensus pattern (38 bp):
TAATGAGAAGAAACTCATCTGAAGAAAGAAGAAGAAGT
Found at i:2944527 original size:148 final size:151
Alignment explanation
Indices: 2944316--2944644 Score: 557
Period size: 148 Copynumber: 2.2 Consensus size: 151
2944306 TATTTTTGCC
2944316 AGAGAAAGTTCATAATGAGAAGAAA--C-TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 AGAGAAAGTT-ATAATGAGAAGAAACTCATCTGAAGAAGGAAGAAGAAGTTC--AATGAGAAGAA
2944378 TTTGTTCAACCTTTTTGCTC-AATCTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTTCATAA
63 TTTGTTCAACCTTTTTGCTCAAATCTATTACTTGATGGGTTATTTTTTTCAGAGAAAG-TCATAA
2944442 TGAGAAGAACTCATCTGAAGAAAGA
127 TGAGAAGAACTCATCTGAAGAAAGA
2944467 AGAGAAAG-T-TAATGAGAAGAAACTCATCTGAAGAAGGAAGAAGAAGTTC-ATGAGAAGAATTT
1 AGAGAAAGTTATAATGAGAAGAAACTCATCTGAAGAAGGAAGAAGAAGTTCAATGAGAAGAATTT
2944529 GTTCAACCTTTTTGCTCAAATCTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTCATAATGAG
66 GTTCAACCTTTTTGCTCAAATCTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTCATAATGAG
2944594 AAGAACTCATCTGAAGAAAGA
131 AAGAACTCATCTGAAGAAAGA
2944615 AGAGAAAGTTCATAATGAGAAG-AACTCATC
1 AGAGAAAGTT-ATAATGAGAAGAAACTCATC
2944645 AAAAGCTTAT
Statistics
Matches: 171, Mismatches: 0, Indels: 15
0.92 0.00 0.08
Matches are distributed among these distances:
148 82 0.48
149 38 0.22
150 10 0.06
151 41 0.24
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (151 bp):
AGAGAAAGTTATAATGAGAAGAAACTCATCTGAAGAAGGAAGAAGAAGTTCAATGAGAAGAATTT
GTTCAACCTTTTTGCTCAAATCTATTACTTGATGGGTTATTTTTTTCAGAGAAAGTCATAATGAG
AAGAACTCATCTGAAGAAAGA
Found at i:2944893 original size:3 final size:3
Alignment explanation
Indices: 2944887--2944937 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
2944877 TTTTTACTCA
*
2944887 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2944934 TAT T
1 TAT T
2944938 TAAAATTACA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2945751 original size:241 final size:241
Alignment explanation
Indices: 2945283--2945764 Score: 932
Period size: 241 Copynumber: 2.0 Consensus size: 241
2945273 TGTCGTCCGG
2945283 TGACCGGCTTCCCTCCGTGAGGGAAGCTAGAGAGAGGGGAGAGCTTTGTTCATTCTCTCTCAGTT
1 TGACCGGCTTCCCTCCGTGAGGGAAGCTAGAGAGAGGGGAGAGCTTTGTTCATTCTCTCTCAGTT
2945348 AGAGAGAGAATGAAAATTGAAAAATGAAAGAGATGGCCCGAAGGGCCGGCTGTCTTGGGCATTAA
66 AGAGAGAGAATGAAAATTGAAAAATGAAAGAGATGGCCCGAAGGGCCGGCTGTCTTGGGCATTAA
2945413 ATAGCCCTTCCCAAACGACGTCGTTTGGGGAGGGCTATTCGTGTAATTAAAGAATAGTTAAATCA
131 ATAGCCCTTCCCAAACGACGTCGTTTGGGGAGGGCTATTCGTGTAATTAAAGAATAGTTAAATCA
2945478 TTTCGTAGCCATCTAAACTTATAAACTTACATTTTAGTCACTAAAT
196 TTTCGTAGCCATCTAAACTTATAAACTTACATTTTAGTCACTAAAT
2945524 TGACCGGCTTCCCTCCGTGAGGGAAGCTAGAGAGAGGGGAGAGCTTTGTTCATTCTCTCTCAGTT
1 TGACCGGCTTCCCTCCGTGAGGGAAGCTAGAGAGAGGGGAGAGCTTTGTTCATTCTCTCTCAGTT
2945589 AGAGAGAGAATGAAAATTGAAAAATGAAAGAGATGGCCCGAAGGGCCGGCTGTCTT-GGCATT-A
66 AGAGAGAGAATGAAAATTGAAAAATGAAAGAGATGGCCCGAAGGGCCGGCTGTCTTGGGCATTAA
2945652 ATAGCCCTTCCCAAACGACGTCGTTTTGGGGAGGGCTATTCGTGTAATTAAAGAATAGTTAAATC
131 ATAGCCCTTCCCAAACGACGTCG-TTTGGGGAGGGCTATTCGTGTAATTAAAGAATAGTTAAATC
2945717 ATTTCGTAGCCATCTAAACTTATAAACTTTACATTTTAGTCACTAAAT
195 ATTTCGTAGCCATCTAAACTTATAAAC-TTACATTTTAGTCACTAAAT
2945765 CGAGTTTATA
Statistics
Matches: 239, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
239 24 0.10
240 74 0.31
241 141 0.59
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (241 bp):
TGACCGGCTTCCCTCCGTGAGGGAAGCTAGAGAGAGGGGAGAGCTTTGTTCATTCTCTCTCAGTT
AGAGAGAGAATGAAAATTGAAAAATGAAAGAGATGGCCCGAAGGGCCGGCTGTCTTGGGCATTAA
ATAGCCCTTCCCAAACGACGTCGTTTGGGGAGGGCTATTCGTGTAATTAAAGAATAGTTAAATCA
TTTCGTAGCCATCTAAACTTATAAACTTACATTTTAGTCACTAAAT
Found at i:2946038 original size:18 final size:17
Alignment explanation
Indices: 2946003--2946042 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2945993 TGTTATATAA
2946003 TAAATAAATATTTATTT
1 TAAATAAATATTTATTT
2946020 TAAATAAAT-TATTATTT
1 TAAATAAATAT-TTATTT
*
2946037 TTAATA
1 TAAATA
2946043 TCGAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAAATATTTATTT
Found at i:2948069 original size:86 final size:86
Alignment explanation
Indices: 2947924--2948085 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 86
2947914 CTATCTTCTT
* *
2947924 TATGTCCGACTATCCTTTATGTATGCATCAAGCGATTGTAAATGACGCTATTTAAATTAATAAAG
1 TATGTCCGACTATCCTTCATGTATGCATCAAGCGATTGTAAATGACGCTATTTAAATTAACAAAG
*
2947989 GTGTGTACTTTCCCCCCCGAG
66 GTGGGTACTTTCCCCCCCGAG
* * * *
2948010 TATGTCTGGCTATCCTTCATGTTTGCATC-AGACGATTGTAAATGACGCTATTTAAATTAACGAA
1 TATGTCCGACTATCCTTCATGTATGCATCAAG-CGATTGTAAATGACGCTATTTAAATTAACAAA
2948074 GGTGGGTACTTT
65 GGTGGGTACTTT
2948086 TTTCCCCTTG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 2 0.03
86 66 0.97
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (86 bp):
TATGTCCGACTATCCTTCATGTATGCATCAAGCGATTGTAAATGACGCTATTTAAATTAACAAAG
GTGGGTACTTTCCCCCCCGAG
Found at i:2948378 original size:21 final size:21
Alignment explanation
Indices: 2948261--2948398 Score: 77
Period size: 21 Copynumber: 6.7 Consensus size: 21
2948251 ACGCGAAATA
**
2948261 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
2948281 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
2948301 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
2948322 AAAATTGCAATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* **
2948343 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * *
2948364 AAAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
2948384 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
2948399 ACACATAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
19 1 0.01
20 39 0.45
21 45 0.52
22 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:2948409 original size:40 final size:40
Alignment explanation
Indices: 2948365--2948519 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
2948355 CGATTTTCCA
* ** *
2948365 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
2948405 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
2948445 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
2948485 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
2948520 TATTTAAAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 62 0.65
41 33 0.34
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.18
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:2948427 original size:20 final size:20
Alignment explanation
Indices: 2948365--2948518 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
2948355 CGATTTTCCA
* ** *
2948365 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
2948385 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
2948405 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2948425 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
2948445 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
2948465 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
2948485 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
2948506 AAATCGCAACGCG
1 AAATCGCAACGCG
2948519 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 92 0.82
21 17 0.15
22 1 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:2948937 original size:33 final size:33
Alignment explanation
Indices: 2948898--2948968 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2948888 TTCACTTAGA
*
2948898 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2948931 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2948964 TTTCA
1 TTTCA
2948969 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2949110 original size:19 final size:19
Alignment explanation
Indices: 2949060--2949147 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 19
2949050 GCAACGAGAT
*
2949060 AAATG-AAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
***
2949078 AGAATGACTGTCGCAACGCG
1 A-AATGAAAATCGCAACGCG
2949098 AAATGAAAATCGCAA--C-
1 AAATGAAAATCGCAACGCG
* *
2949114 -TA-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
2949131 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
2949148 AGAGAATCGC
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 1 0.02
17 1 0.02
18 2 0.04
19 27 0.52
20 10 0.19
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.12
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:2949125 original size:33 final size:33
Alignment explanation
Indices: 2949088--2949166 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
2949078 AGAATGACTG
*
2949088 TCGCAACGCGAAATGAAAATCGCAACTAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
2949121 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
2949154 TCGCAACGCGAAA
1 TCGCAACGCGAAA
2949167 CCAAAAATCG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (33 bp):
TCGCAACGCGAAATGAAAATCGCAACGAGAGAA
Found at i:2949157 original size:14 final size:14
Alignment explanation
Indices: 2949105--2949161 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2949095 GCGAAATGAA
*
2949105 AATCGCAACTAGAG
1 AATCGCAACGAGAG
*
2949119 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2949138 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2949152 AATCGCAACG
1 AATCGCAACG
2949162 CGAAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2949201 original size:19 final size:19
Alignment explanation
Indices: 2949174--2949299 Score: 101
Period size: 19 Copynumber: 7.1 Consensus size: 19
2949164 AAACCAAAAA
*
2949174 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2949193 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2949207 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2949226 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
**
2949240 TCTAGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
***
2949259 TCGCGTTGCGACAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2949278 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2949298 TC
1 TC
2949300 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
14 19 0.23
16 6 0.07
17 6 0.07
19 36 0.44
20 15 0.18
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2949215 original size:14 final size:14
Alignment explanation
Indices: 2949196--2949252 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
2949186 TTTCATTTCG
2949196 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2949210 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2949229 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2949243 AGTTGCGATT
1 CGTTGCGATT
2949253 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2949290 original size:39 final size:33
Alignment explanation
Indices: 2949179--2949299 Score: 179
Period size: 33 Copynumber: 3.5 Consensus size: 33
2949169 AAAAATCGCA
2949179 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2949212 TTGCGATTTTCATTTCGCGTTGCGATTCTCTAG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2949245 TTGCGATTTTCATTTCGCGTTGCGACAGTCATTCTCTCG
1 TTGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCG
2949284 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2949300 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
33 53 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 24 0.30
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2950344 original size:20 final size:20
Alignment explanation
Indices: 2950316--2950585 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
2950306 AAATTTCAGT
* * *
2950316 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2950336 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2950356 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2950376 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
2950396 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
2950416 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
2950436 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
2950456 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
2950476 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
2950496 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
2950516 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
2950536 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
2950556 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
2950576 GTTGCGATTT
1 GTTGCGATTT
2950586 TAGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:2950637 original size:21 final size:21
Alignment explanation
Indices: 2950552--2950649 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
2950542 ATTTATGTGT
* *
2950552 TCGCGTTGCGATTTTC-ATAT
1 TCGCGTTGCGATTTTCAAAAA
2950572 TCGCGTTGCGATTTT-AGAAAA
1 TCGCGTTGCGATTTTCA-AAAA
** * ** **
2950593 TCGCAATGCGAATTTGTACTA
1 TCGCGTTGCGATTTTCAAAAA
* *
2950614 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAAAAA
2950635 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
2950650 GGAAACTGAT
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCAAAAA
Found at i:2950645 original size:42 final size:43
Alignment explanation
Indices: 2950552--2950650 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
2950542 ATTTATGTGT
*
2950552 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTAGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTAGAAAA
** *
2950593 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTTCA-AGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTT-AGAAAA
*
2950635 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
2950651 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 8 0.17
42 35 0.74
43 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTAGAAAA
Found at i:2959105 original size:20 final size:20
Alignment explanation
Indices: 2959075--2959151 Score: 61
Period size: 20 Copynumber: 3.8 Consensus size: 20
2959065 CATAACCCCA
2959075 GGGGGATATCGATTCCCCTGT
1 GGGGGA-ATCGATTCCCCTGT
*
2959096 GGGGGAATCGGTTCCCCT-T
1 GGGGGAATCGATTCCCCTGT
** *
2959115 CAAGGGAATCGGTTCCCTCATG-
1 -GGGGGAATCGATTCCC-C-TGT
2959137 GGGGG-ATCGATTCCC
1 GGGGGAATCGATTCCC
2959152 TCTGCACCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 34 0.74
21 10 0.22
22 1 0.02
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.25
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:2961310 original size:31 final size:31
Alignment explanation
Indices: 2961264--2961352 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 31
2961254 CAATTTAAGG
2961264 CAAAATGG-TTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2961294 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2961325 C-AAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2961353 TTCAAAATTT
Statistics
Matches: 58, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 11 0.19
29 12 0.21
30 12 0.21
31 23 0.40
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:2961456 original size:19 final size:19
Alignment explanation
Indices: 2961417--2961482 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
2961407 AATGTTTTTA
* *
2961417 TGAATAGTAATTTACTA-T
1 TGAACAGTAAATTACTATT
*
2961435 TGAATAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
* *
2961454 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
2961473 TGAACAGTAA
1 TGAACAGTAA
2961483 CCGAGGCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
18 16 0.37
19 27 0.63
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:2961613 original size:21 final size:21
Alignment explanation
Indices: 2961584--2961625 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2961574 TATTTGAATA
* *
2961584 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCAATTCCC
*
2961605 TATGCAGGGGTACCAATTCCC
1 TATGAAGGGGTACCAATTCCC
2961626 CCCATTCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCAATTCCC
Found at i:2961687 original size:21 final size:21
Alignment explanation
Indices: 2961654--2961693 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2961644 TTTGAGTAGA
*
2961654 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
2961676 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
2961694 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:2967077 original size:22 final size:23
Alignment explanation
Indices: 2967051--2967111 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
2967041 AGAACCCTAG
*
2967051 GGGGGAATTGATTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTCAAA
*
2967074 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGATTCCCCTTCAAA
*
2967096 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
2967112 TCTGCCCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 16 0.47
23 18 0.53
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (23 bp):
GGGGGAATCGATTCCCCTTCAAA
Found at i:2978786 original size:74 final size:74
Alignment explanation
Indices: 2978670--2979152 Score: 580
Period size: 74 Copynumber: 6.5 Consensus size: 74
2978660 CTAGAAATAT
* * *
2978670 AAAATAAGCGCTACATATTATATTAAAATACCTACCGATTTTTTTGAAAGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTT-AAAGTTGCTAATAATGTAA
2978735 ACGGT-AAAA
65 ACGGTAAAAA
* * * * * *
2978744 AAAATATGTGTTACCTATTACATTAAACTACCTACAGATTTTTTT-AAGTTTACTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAAG-TTGCTAATAATGTAA
2978808 ACGGTAAAAA
65 ACGGTAAAAA
* * * * * * *
2978818 AAAATAGGCACTACCTATTATATTAAACTACCTATCGGTTTGTTTAAAGATTACTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAAG-TTGCTAATAATGTAA
*
2978883 ACGGTAAAAT
65 ACGGTAAAAA
* * * *
2978893 AAAATAAGCGCTACAT-TTACATTAAAATACTTACCGA-TTTTTTAAGGTTGCTAATAATGTAAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAAGTTGCTAATAATGTAAA
2978956 CGGTAAAAA
66 CGGTAAAAA
* *
2978965 AAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTTTAAGGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGA-TTTTTTTAAAGTTGCTAATAATGTAA
**
2979030 AATGTAAAAAAA
65 ACGGT--AAAAA
* * * *
2979042 AAAATAGGTGCTACCTATTACATTAAAATACCTACC-AGTTTTTTGAAGGTTGTTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGA-TTTTTTTAAAGTTGCTAATAATGTAA
2979106 ACGGTAAAAA
65 ACGGTAAAAA
** *
2979116 AAAATAGGTACTACCTATTACATTAAATTACCTACCG
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCG
2979153 GATATGTTGG
Statistics
Matches: 355, Mismatches: 45, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
72 40 0.11
73 47 0.13
74 133 0.37
75 68 0.19
76 28 0.08
77 39 0.11
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (74 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACCGATTTTTTTAAAGTTGCTAATAATGTAAA
CGGTAAAAA
Found at i:2979022 original size:147 final size:148
Alignment explanation
Indices: 2978670--2979152 Score: 614
Period size: 147 Copynumber: 3.2 Consensus size: 148
2978660 CTAGAAATAT
* * * *
2978670 AAAATAAGCGCTACATATTATATTAAAATACCTACCGATTTTTTTGAAA-GTTGCTAATAATGTA
1 AAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTT-AAAGGTTGCTAATAATGTA
* * * * * * *
2978734 AACGGTAAAAAAAATATGTGTTACCTATTACATTAAACTACCTACAGATTTTTTTAAGTTTACTA
65 AACGGTAAAAAAAATAAGTGCTACCTATTACATTAAAATACCTACCGAGTTTTTTAAGGTTGCTA
2978799 ATAATGTAAACGGTAAAAA
130 ATAATGTAAACGGTAAAAA
* * * * * * *
2978818 AAAATAGGCACTACCTATTATATTAAACTACCTATCGGTTTGTTTAAAGATTACTAATAATGTAA
1 AAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTTAAAGGTTGCTAATAATGTAA
* * *
2978883 ACGGTAAAATAAAATAAGCGCTACAT-TTACATTAAAATACTTACCGA-TTTTTTAAGGTTGCTA
66 ACGGTAAAA-AAAATAAGTGCTACCTATTACATTAAAATACCTACCGAGTTTTTTAAGGTTGCTA
2978946 ATAATGTAAACGGTAAAAA
130 ATAATGTAAACGGTAAAAA
* * *
2978965 AAAATAGGCGCTACCTATTACATTAAAATACATACCGATTTTTTTTAAGGTTGCTAATAATGTAA
1 AAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTTAAAGGTTGCTAATAATGTAA
** *
2979030 AATGTAAAAAAAAAAATAGGTGCTACCTATTACATTAAAATACCTACC-AGTTTTTTGAAGGTTG
66 ACGGT---AAAAAAAATAAGTGCTACCTATTACATTAAAATACCTACCGAGTTTTTT-AAGGTTG
*
2979094 TTAATAATGTAAACGGTAAAAA
127 CTAATAATGTAAACGGTAAAAA
* *
2979116 AAAATAGGTACTACCTATTACATTAAATTACCTACCG
1 AAAATAGGCACTACCTATTACATTAAAATACCTACCG
2979153 GATATGTTGG
Statistics
Matches: 288, Mismatches: 39, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
147 94 0.33
148 79 0.27
149 26 0.09
150 28 0.10
151 61 0.21
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (148 bp):
AAAATAGGCACTACCTATTACATTAAAATACCTACCGATTTTTTTAAAGGTTGCTAATAATGTAA
ACGGTAAAAAAAATAAGTGCTACCTATTACATTAAAATACCTACCGAGTTTTTTAAGGTTGCTAA
TAATGTAAACGGTAAAAA
Found at i:2984388 original size:44 final size:43
Alignment explanation
Indices: 2984268--2984667 Score: 275
Period size: 44 Copynumber: 9.0 Consensus size: 43
2984258 ATTTTAACTA
* *
2984268 TAGAAATTGAGATTGAAAAAAATAGGAGCCTCAATTATAAAGG
1 TAGAAAGTGAGATTGAAAAAATTAGGAGCCTCAATTATAAAGG
* * *
2984311 TA-TAATTGAGATTGAAAAACTTAGGAGCCTCAATTATAAAGG
1 TAGAAAGTGAGATTGAAAAAATTAGGAGCCTCAATTATAAAGG
* *
2984353 TAGAAAGTGAGATTGAAAAAACTTAGGAGACTCAATTATAAAGT
1 TAGAAAGTGAGATTGAAAAAA-TTAGGAGCCTCAATTATAAAGG
* * * *
2984397 TAAAAAAGTGGGATTAAAAAAATTAAGGA-CCTCAGTTATAAAGG
1 T-AGAAAGTGAGATTGAAAAAATT-AGGAGCCTCAATTATAAAGG
*
2984441 TAGAAA-TCGAGATTAAAAAAATTTAGGAGCCTCAATGGTAAAGGTAGAAAAGG
1 TAGAAAGT-GAGATTGAAAAAA-TTAGGAGCCTCAAT--T--A--T---AAAGG
* * *
2984494 TAG-AAGTGAGAATGAAAAAACTTAAGG-GTCTCAATTATAAAGC
1 TAGAAAGTGAGATTGAAAAAA-TT-AGGAGCCTCAATTATAAAGG
* * *
2984537 TA-AAACGTGGGATT-AAGAAATTATGG-GTCTCAATTATAAAGG
1 TAGAAA-GTGAGATTGAAAAAATTA-GGAGCCTCAATTATAAAGG
* ** * **
2984579 TAAAAAAAAAGAGATTG-AAAAATTA-GAGACTTCAATTATAAAAA
1 T--AGAAAGTGAGATTGAAAAAATTAGGAG-CCTCAATTATAAAGG
**
2984623 TA-AAAGGTGAGATTGAATAAAATTAGGA-TATCAATTATAAAGG
1 TAGAAA-GTGAGATTGAA-AAAATTAGGAGCCTCAATTATAAAGG
2984666 TA
1 TA
2984668 AATTTGTTTT
Statistics
Matches: 286, Mismatches: 40, Indels: 62
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.01
42 69 0.24
43 65 0.23
44 82 0.29
45 26 0.09
46 2 0.01
48 2 0.01
50 2 0.01
52 22 0.08
53 12 0.04
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (43 bp):
TAGAAAGTGAGATTGAAAAAATTAGGAGCCTCAATTATAAAGG
Found at i:2984593 original size:140 final size:141
Alignment explanation
Indices: 2984348--2984600 Score: 334
Period size: 140 Copynumber: 1.8 Consensus size: 141
2984338 CCTCAATTAT
* *
2984348 AAAGGTAGAAAGTGAGATTGAAAAAACTTAGGAGACTCAATTATAAAGTTAAAAAAGTGGGATTA
1 AAAGGTAGAAAGTGAGAATGAAAAAACTTAGGAGACTCAATTATAAAGCTAAAAAAGTGGGATTA
* * **
2984413 AAAAAATTAAGGACCTCAGTTATAAAGGTAGAAATCGAGATTAAAAAAATTTAGGAGCCTCAATG
66 AAAAAATTAAGGACCTCAATTATAAAGGTAAAAAAAGAGATTAAAAAAATTTAGGAGCCTCAATG
2984478 GTAAAGGTAGA
131 GTAAAGGTAGA
* *
2984489 AAAGGTAG-AAGTGAGAATGAAAAAACTTAAGG-GTCTCAATTATAAAGCT-AAAACGTGGGATT
1 AAAGGTAGAAAGTGAGAATGAAAAAACTT-AGGAGACTCAATTATAAAGCTAAAAAAGTGGGATT
* * ** *
2984551 -AAGAAATTATGGGTCTCAATTATAAAGGTAAAAAAAAAGAGATTGAAAAA
65 AAAAAAATTAAGGACCTCAATTATAAAGGT--AAAAAAAGAGATTAAAAAA
2984601 TTAGAGACTT
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
138 24 0.25
139 12 0.12
140 49 0.51
141 11 0.11
ACGTcount: A:0.49, C:0.07, G:0.22, T:0.23
Consensus pattern (141 bp):
AAAGGTAGAAAGTGAGAATGAAAAAACTTAGGAGACTCAATTATAAAGCTAAAAAAGTGGGATTA
AAAAAATTAAGGACCTCAATTATAAAGGTAAAAAAAGAGATTAAAAAAATTTAGGAGCCTCAATG
GTAAAGGTAGA
Found at i:2984718 original size:33 final size:33
Alignment explanation
Indices: 2984678--2984775 Score: 127
Period size: 29 Copynumber: 3.2 Consensus size: 33
2984668 AATTTGTTTT
*
2984678 AAAAAAAATTA-GAGGCCTAATTACAAAGATGA
1 AAAAAAAAATAGGAGGCCTAATTACAAAGATGA
2984710 AAAAAAAAATAGGAGGCCTAATTACAAAGATG-
1 AAAAAAAAATAGGAGGCCTAATTACAAAGATGA
* *
2984742 ---AAAAAATAGGAGCCCTAATTACAAAAAT-A
1 AAAAAAAAATAGGAGGCCTAATTACAAAGATGA
2984771 AAAAA
1 AAAAA
2984776 TAGAGCCCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
29 26 0.45
32 12 0.21
33 20 0.34
ACGTcount: A:0.59, C:0.10, G:0.14, T:0.16
Consensus pattern (33 bp):
AAAAAAAAATAGGAGGCCTAATTACAAAGATGA
Found at i:2984787 original size:28 final size:28
Alignment explanation
Indices: 2984709--2984783 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
2984699 TACAAAGATG
*
2984709 AAAA-AAAAAATAGGAGGCCTAATTACA
1 AAAATAAAAAATAGGAGCCCTAATTACA
*
2984736 AAGATGAAAAAATAGGAGCCCTAATTACA
1 AAAAT-AAAAAATAGGAGCCCTAATTACA
2984765 AAAATAAAAAATA-GAGCCC
1 AAAATAAAAAATAGGAGCCC
2984784 CTAAGCAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 9 0.21
28 8 0.19
29 26 0.60
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (28 bp):
AAAATAAAAAATAGGAGCCCTAATTACA
Found at i:2985269 original size:20 final size:21
Alignment explanation
Indices: 2985244--2985336 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2985234 TTTTCCCAAT
*
2985244 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2985264 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2985285 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2985305 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2985326 TCGCAATGCGA
1 TCGCAATGCGA
2985337 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2985289 original size:41 final size:41
Alignment explanation
Indices: 2985244--2985336 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2985234 TTTTCCCAAT
2985244 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2985285 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2985326 TCGCAATGCGA
1 TCGCAATGCGA
2985337 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2985349 original size:41 final size:41
Alignment explanation
Indices: 2985263--2985397 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
2985253 GAATAAGTAA
* *
2985263 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
2985304 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
2985345 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
2985386 TTCGCAACGCGA
1 ATCGCAACGCGA
2985398 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:2985350 original size:20 final size:20
Alignment explanation
Indices: 2985325--2985419 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
2985315 AATTGGGAAA
*
2985325 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
2985345 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
2985366 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
2985386 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
2985406 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2985420 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2985632 original size:22 final size:22
Alignment explanation
Indices: 2985604--2985647 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2985594 CTCACTCTCA
2985604 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2985626 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2985648 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2987285 original size:18 final size:18
Alignment explanation
Indices: 2987264--2987308 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2987254 TCCACTTCGG
*
2987264 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2987282 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2987300 GAGCCATCA
1 GAGCCATCA
2987309 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2987835 original size:19 final size:20
Alignment explanation
Indices: 2987781--2987836 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2987771 TAGTTTACTT
* *
2987781 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2987801 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
2987821 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
2987837 AAACCGCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2987858 original size:14 final size:14
Alignment explanation
Indices: 2987836--2987891 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
2987826 ATGCGAAATG
*
2987836 AAAACCGCAACGAC
1 AAAATCGCAACGAC
*
2987850 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2987866 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2987882 AAAATCGCAA
1 AAAATCGCAA
2987892 TGTGATTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 18 0.51
16 8 0.23
18 9 0.26
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2987882 original size:32 final size:33
Alignment explanation
Indices: 2987820--2987893 Score: 132
Period size: 32 Copynumber: 2.3 Consensus size: 33
2987810 GGAAATGGCT
2987820 ATCGCAATGCGAAATGAAAACCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAACCGCAACGACAAA
*
2987853 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAACCGCAACGACAAA
2987885 ATCGCAATG
1 ATCGCAATG
2987894 TGATTTGTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 24 0.60
33 16 0.40
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAACCGCAACGACAAA
Found at i:2987927 original size:14 final size:14
Alignment explanation
Indices: 2987908--2987965 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
2987898 TTGTGTTTCG
2987908 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
2987922 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
2987938 CGCGTTACGATTTTGT
1 --CGTTGCGATTTTGT
*
2987954 CGTTGTGATTTT
1 CGTTGCGATTTT
2987966 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.60
16 4 0.11
18 10 0.29
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2987939 original size:32 final size:33
Alignment explanation
Indices: 2987903--2987981 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
2987893 GTGATTTGTG
2987903 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
* *
2987935 TTTCGCGTTACGATTTTGTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
2987968 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2987982 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:2988008 original size:20 final size:20
Alignment explanation
Indices: 2987954--2988010 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
2987944 ACGATTTTGT
**
2987954 CGTTGTGATTTTCATTT-CG
1 CGTTGTGATAGTCATTTCCG
* * *
2987973 CATTGCGATAGCCATTTCCG
1 CGTTGTGATAGTCATTTCCG
2987993 CGTTGTGATAGTCATTTC
1 CGTTGTGATAGTCATTTC
2988011 GTGTTGCGAT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
CGTTGTGATAGTCATTTCCG
Found at i:2990056 original size:14 final size:14
Alignment explanation
Indices: 2990029--2990089 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
2990019 CGAAATGGCT
* *
2990029 ATCGCAACGAGAAA
1 ATCGCAATGCGAAA
2990043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG--A--A-A
2990062 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
*
2990076 ATTGCAATGCGAAA
1 ATCGCAATGCGAAA
2990090 TGAAAATCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 23 0.59
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 12 0.31
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (14 bp):
ATCGCAATGCGAAA
Found at i:2990061 original size:19 final size:19
Alignment explanation
Indices: 2990039--2990158 Score: 161
Period size: 19 Copynumber: 6.8 Consensus size: 19
2990029 ATCGCAACGA
2990039 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2990058 GAAAATCGCAATGC-----
1 GAAAATCGCAATGCGAAAT
*
2990072 GAAAATTGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2990091 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2990110 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
2990129 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
2990143 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
2990159 TTTTCATTTC
Statistics
Matches: 91, Mismatches: 2, Indels: 18
0.82 0.02 0.16
Matches are distributed among these distances:
14 24 0.26
15 1 0.01
16 2 0.02
17 2 0.02
19 62 0.68
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:2990123 original size:38 final size:33
Alignment explanation
Indices: 2990010--2990158 Score: 190
Period size: 33 Copynumber: 4.4 Consensus size: 33
2990000 AAAACAGACT
* ***
2990010 ATCGCAACGCGAAATGGCTATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
2990043 ATCGCAATGCGAAATGAAAATCGCAATGCGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
*
2990076 ATTGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAA
2990114 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
2990147 ATCGCAATGCGA
1 ATCGCAATGCGA
2990159 TTTTCATTTC
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
33 68 0.67
34 1 0.01
35 1 0.01
36 2 0.02
38 29 0.29
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:2990127 original size:14 final size:14
Alignment explanation
Indices: 2990058--2990089 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2990048 AATGCGAAAT
2990058 GAAAATCGCAATGC
1 GAAAATCGCAATGC
*
2990072 GAAAATTGCAATGC
1 GAAAATCGCAATGC
2990086 GAAA
1 GAAA
2990090 TGAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (14 bp):
GAAAATCGCAATGC
Found at i:2990234 original size:20 final size:20
Alignment explanation
Indices: 2990177--2990234 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
2990167 TCGCATTGCG
*
2990177 ATTTTCTCGTTGCGATAACC
1 ATTTTCTCGTTGCGATAGCC
2990197 ATTTTCTCGTTGCGATAGCC
1 ATTTTCTCGTTGCGATAGCC
*
2990217 ATTTTCGCGTTGCGATAG
1 ATTTTCTCGTTGCGATAG
2990235 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTTCTCGTTGCGATAGCC
Found at i:2991321 original size:24 final size:24
Alignment explanation
Indices: 2991294--2991347 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2991284 GTATTCGAAA
* *
2991294 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
2991318 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
2991342 TTTGAT
1 TTTGAT
2991348 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:2991538 original size:12 final size:12
Alignment explanation
Indices: 2991521--2991545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2991511 ATATAATCCT
2991521 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2991533 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2991545 G
1 G
2991546 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2993829 original size:14 final size:14
Alignment explanation
Indices: 2993810--2993864 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2993800 GCGAAATGAA
2993810 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2993824 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2993843 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2993857 AATCGCAA
1 AATCGCAA
2993865 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2993834 original size:33 final size:33
Alignment explanation
Indices: 2993792--2993951 Score: 259
Period size: 33 Copynumber: 4.8 Consensus size: 33
2993782 AGAAATTACT
2993792 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2993825 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
2993858 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2993890 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2993924 ATCGCAATGCAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2993952 CGAATTTAAT
Statistics
Matches: 117, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
32 1 0.01
33 115 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2994153 original size:14 final size:14
Alignment explanation
Indices: 2994134--2994170 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2994124 CATCAATTAA
2994134 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2994148 ACAAATCACCTTTT
1 ACAAATCAACTTTT
2994162 ACAAATCAA
1 ACAAATCAA
2994171 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2995591 original size:21 final size:21
Alignment explanation
Indices: 2995525--2995591 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2995515 GTGAATCGGG
*
2995525 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2995545 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2995567 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2995588 CTCT
1 CTCT
2995592 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2995610 original size:42 final size:41
Alignment explanation
Indices: 2995525--2995647 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2995515 GTGAATCGGG
* * * * *
2995525 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
2995567 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
2995609 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
2995648 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:2997729 original size:33 final size:33
Alignment explanation
Indices: 2997672--2997770 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
2997662 ACGAGATAAT
*
2997672 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
2997706 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
2997739 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
2997771 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:2997764 original size:19 final size:19
Alignment explanation
Indices: 2997647--2997831 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
2997637 TCTTTTGGTT
*
2997647 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
2997666 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2997686 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2997704 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
2997720 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
2997738 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2997753 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
2997773 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2997792 GAAATGAAAATCACAACGC
1 GAAATGAAAATCGCAACGC
*
2997811 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2997830 GA
1 GA
2997832 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2997785 original size:39 final size:38
Alignment explanation
Indices: 2997742--2997831 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
2997732 GCGACCAGAC
*
2997742 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCACAA-CGCGAAATAAA
*
2997781 AATCGCAACGCGAAATGAAAATCACAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCACAACGCGAAATAAA
*
2997819 AATCGCAATGCGA
1 AATCGCAACGCGA
2997832 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 22 0.46
39 26 0.54
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCACAACGCGAAATAAA
Found at i:2997860 original size:19 final size:19
Alignment explanation
Indices: 2997827--2997907 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 19
2997817 AAAATCGCAA
**
2997827 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
2997846 TGCGATTTTTATTTCACGT
1 TGCGATTTTTATTTCGCGT
*
2997865 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
2997879 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
2997899 TGCGATTTT
1 TGCGATTTT
2997908 CATTCTCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 22 0.45
20 11 0.22
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:2998492 original size:41 final size:41
Alignment explanation
Indices: 2998440--2998517 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
2998430 CGAAAGTCAG
* * *
2998440 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
* *
2998481 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
2998518 CCCAATTCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:2998514 original size:20 final size:20
Alignment explanation
Indices: 2998421--2998514 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
2998411 CGCTATGTAA
*
2998421 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
2998441 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
2998461 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
2998482 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
2998502 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2998515 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:2998533 original size:41 final size:41
Alignment explanation
Indices: 2998440--2998535 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
2998430 CGAAAGTCAG
* * * ** *
2998440 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
* *
2998481 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
2998523 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
2998536 TTACTTATTC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:2999319 original size:25 final size:26
Alignment explanation
Indices: 2999288--2999340 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
2999278 TTCTCAGACG
*
2999288 CATATATTTCATGCCGAAT-TGTAGA
1 CATATATTTCATGCCGAATGTATAGA
*
2999313 CATATATTTCTTGCCGAATGTATAGA
1 CATATATTTCATGCCGAATGTATAGA
2999339 CA
1 CA
2999341 AGTGGTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (26 bp):
CATATATTTCATGCCGAATGTATAGA
Found at i:2999637 original size:16 final size:16
Alignment explanation
Indices: 2999609--2999685 Score: 62
Period size: 15 Copynumber: 5.1 Consensus size: 16
2999599 AAGTTTTATT
2999609 TTTTAA-TTT-AATTA
1 TTTTAATTTTAAATTA
2999623 -TTTAACTTTTAAATTA
1 TTTTAA-TTTTAAATTA
2999639 TTCTTAA-TTT-AATTA
1 TT-TTAATTTTAAATTA
2999654 TTTTAAATTTTAAATT-
1 TTTT-AATTTTAAATTA
2999670 TATTT-ATTTT-AATTA
1 T-TTTAATTTTAAATTA
2999685 T
1 T
2999686 ATATTAATAA
Statistics
Matches: 53, Mismatches: 0, Indels: 19
0.74 0.00 0.26
Matches are distributed among these distances:
13 5 0.09
14 6 0.11
15 18 0.34
16 12 0.23
17 8 0.15
18 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAATTTTAAATTA
Found at i:2999646 original size:31 final size:30
Alignment explanation
Indices: 2999606--2999685 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 30
2999596 TTGAAGTTTT
*
2999606 ATTT-TTTAATTTAATTATTTAACTTTTAA
1 ATTTATTTAATTTAATTATTTAAATTTTAA
2999635 A-TTATTCTTAATTTAATTATTTTAAATTTTAA
1 ATTTA-T-TTAATTTAATTA-TTTAAATTTTAA
*
2999667 ATTTATTTATTTTAATTAT
1 ATTTATTTAATTTAATTAT
2999686 ATATTAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
28 2 0.05
29 1 0.02
30 2 0.05
31 23 0.52
32 13 0.30
33 3 0.07
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTATTTAATTTAATTATTTAAATTTTAA
Found at i:3000124 original size:31 final size:29
Alignment explanation
Indices: 3000063--3000126 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 29
3000053 TATAGCTATA
3000063 ATTTTATAAATAAAAATTTTAAAATTTTAT
1 ATTTTATAAATAAAAATTTTAAAA-TTTAT
*
3000093 ATTTTATTAATATAAAATTATTATAAA-TTAT
1 ATTTTATAAATA-AAAATT-TTA-AAATTTAT
3000124 ATT
1 ATT
3000127 AATTATTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 11 0.37
31 13 0.43
32 3 0.10
33 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTTTATAAATAAAAATTTTAAAATTTAT
Found at i:3000130 original size:19 final size:19
Alignment explanation
Indices: 3000108--3000175 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 19
3000098 ATTAATATAA
3000108 AATTATTATAAATTATATT
1 AATTATTATAAATTATATT
* * *
3000127 AATTATTTATTAAAATAAGAAT
1 AATTA-TTA-T-AAATTATATT
* *
3000149 AATATATTATTAACTATATT
1 AAT-TATTATAAATTATATT
3000169 AATTATT
1 AATTATT
3000176 TATTAAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
19 9 0.24
20 11 0.30
21 2 0.05
22 13 0.35
23 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
AATTATTATAAATTATATT
Found at i:3000157 original size:42 final size:42
Alignment explanation
Indices: 3000111--3000191 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
3000101 AATATAAAAT
*
3000111 TATTATAAATTATATTAATTATTTATTAAAATAAGAATAATA
1 TATTATAAACTATATTAATTATTTATTAAAATAAGAATAATA
* *
3000153 TATTATTAACTATATTAATTATTTATTAAAATAATAATA
1 TATTATAAACTATATTAATTATTTATTAAAATAAGAATA
3000192 TTGTTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (42 bp):
TATTATAAACTATATTAATTATTTATTAAAATAAGAATAATA
Found at i:3000233 original size:20 final size:22
Alignment explanation
Indices: 3000189--3000233 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
3000179 TAAAATAATA
3000189 ATATTGTTAAAATATTAAAACTT
1 ATATTGTTAAAATA-TAAAACTT
3000212 ATATTGTTAAAATA-AAAA-TT
1 ATATTGTTAAAATATAAAACTT
3000232 AT
1 AT
3000234 TATATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 4 0.18
23 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
ATATTGTTAAAATATAAAACTT
Found at i:3000236 original size:23 final size:23
Alignment explanation
Indices: 3000179--3000243 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
3000169 AATTATTTAT
*
3000179 TAAAATAATAATATTGTTAAAATA
1 TAAAAT-ATTATATTGTTAAAATA
*
3000203 TTAAAA-CTTATATTGTTAAAATA
1 -TAAAATATTATATTGTTAAAATA
3000226 -AAAATTATTATATT-TTAA
1 TAAAA-TATTATATTGTTAA
3000244 GGAGCATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 22 0.63
25 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
TAAAATATTATATTGTTAAAATA
Found at i:3000382 original size:14 final size:14
Alignment explanation
Indices: 3000363--3000392 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3000353 AATATTATGT
*
3000363 ATTATAATAATATA
1 ATTATAACAATATA
3000377 ATTATAACAATATA
1 ATTATAACAATATA
3000391 AT
1 AT
3000393 ATTATGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTATAACAATATA
Found at i:3000415 original size:35 final size:38
Alignment explanation
Indices: 3000351--3000433 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 38
3000341 AATAAAAGTA
* *
3000351 ATAATATTATGTATTATAATAATATAATTAT-AA-CAAT
1 ATAATATTATG-ATTATAATAATAAAATTATCAATAAAT
* *
3000388 ATAATATTATG-TTATATTATTAAAATTATCAATAAAT
1 ATAATATTATGATTATAATAATAAAATTATCAATAAAT
3000425 ATAAT-TTAT
1 ATAATATTAT
3000434 TAATTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 15 0.38
36 6 0.15
37 19 0.47
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (38 bp):
ATAATATTATGATTATAATAATAAAATTATCAATAAAT
Found at i:3002276 original size:24 final size:24
Alignment explanation
Indices: 3002249--3002357 Score: 119
Period size: 24 Copynumber: 4.5 Consensus size: 24
3002239 TATATAAAAA
* *
3002249 ATCAAAACATAATTCAGGTCAAGT
1 ATCAAATCATAATCCAGGTCAAGT
* *
3002273 ATCATATCAGAATCCAGGTCAAGT
1 ATCAAATCATAATCCAGGTCAAGT
* *
3002297 ATCAAATCAAAATCCAGGTAAAGT
1 ATCAAATCATAATCCAGGTCAAGT
* * *
3002321 ATCAGATCATAATCCATGTCAGGT
1 ATCAAATCATAATCCAGGTCAAGT
* *
3002345 ATCATACCATAAT
1 ATCAAATCATAAT
3002358 TCAAATTGGA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (24 bp):
ATCAAATCATAATCCAGGTCAAGT
Found at i:3004779 original size:18 final size:18
Alignment explanation
Indices: 3004756--3004832 Score: 75
Period size: 18 Copynumber: 4.1 Consensus size: 18
3004746 AACGGTCAAC
3004756 GGTCAACGGGTCAGGTCG
1 GGTCAACGGGTCAGGTCG
*
3004774 GGTCAATGGGTCAGGTCGGGTCG
1 GGTCAACGGGTCA-----GGTCG
*
3004797 GGTCAATGGGTCAGGTCG
1 GGTCAACGGGTCAGGTCG
*
3004815 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCAGGTCG
3004832 G
1 G
3004833 ATTGGGTCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 10 0.20
18 23 0.45
23 18 0.35
ACGTcount: A:0.14, C:0.19, G:0.47, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCAGGTCG
Found at i:3004795 original size:23 final size:23
Alignment explanation
Indices: 3004764--3004818 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
3004754 ACGGTCAACG
*
3004764 GGTCAGGTCGGGTCAATGGGTCA
1 GGTCGGGTCGGGTCAATGGGTCA
3004787 GGTCGGGTCGGGTCAATGGGTCA
1 GGTCGGGTCGGGTCAATGGGTCA
3004810 GGTCGGGTC
1 GGTCGGGTC
3004819 AACGGTCGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.47, T:0.22
Consensus pattern (23 bp):
GGTCGGGTCGGGTCAATGGGTCA
Found at i:3005691 original size:16 final size:16
Alignment explanation
Indices: 3005672--3005708 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
3005662 CCTAGTCAAA
3005672 CTCGAGTATTGCTAAG
1 CTCGAGTATTGCTAAG
*
3005688 CTCGAGTATTGTTAAG
1 CTCGAGTATTGCTAAG
3005704 CTCGA
1 CTCGA
3005709 CTCGACTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (16 bp):
CTCGAGTATTGCTAAG
Found at i:3007250 original size:15 final size:15
Alignment explanation
Indices: 3007229--3007267 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
3007219 TCTCTATCTT
*
3007229 ATTTTATTTATTGTA
1 ATTTTATTAATTGTA
* *
3007244 GTTTTATTAATTTTA
1 ATTTTATTAATTGTA
3007259 ATTTTATTA
1 ATTTTATTA
3007268 CAAAACTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
ATTTTATTAATTGTA
Found at i:3011888 original size:8 final size:8
Alignment explanation
Indices: 3011867--3011914 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
3011857 TAAACAAATA
*
3011867 TTATTTAT
1 TTATATAT
3011875 TATATATAT
1 T-TATATAT
*
3011884 ATATATAT
1 TTATATAT
*
3011892 TTATTTAT
1 TTATATAT
*
3011900 TTATTTAT
1 TTATATAT
3011908 TTATATA
1 TTATATA
3011915 AATAATAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 28 0.82
9 6 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATATAT
Found at i:3011890 original size:12 final size:12
Alignment explanation
Indices: 3011867--3011914 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
3011857 TAAACAAATA
3011867 TTATTTATTATAT
1 TTATTTA-TATAT
* *
3011880 ATATATATATAT
1 TTATTTATATAT
*
3011892 TTATTTATTTAT
1 TTATTTATATAT
3011904 TTATTTATATA
1 TTATTTATATA
3011915 AATAATAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 24 0.83
13 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTTATATAT
Found at i:3011951 original size:26 final size:26
Alignment explanation
Indices: 3011915--3011970 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
3011905 TATTTATATA
3011915 AATAATAAAAATAATAATAATG-AAAT
1 AATAATAAAAA-AATAATAATGCAAAT
* *
3011941 AATAATTAAAAAATAATATTGCAAAT
1 AATAATAAAAAAATAATAATGCAAAT
3011967 AATA
1 AATA
3011971 TTGCAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (26 bp):
AATAATAAAAAAATAATAATGCAAAT
Found at i:3011954 original size:14 final size:13
Alignment explanation
Indices: 3011915--3011958 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
3011905 TATTTATATA
3011915 AATAAT-AAAAAT
1 AATAATAAAAAAT
*
3011927 AATAATAATGAAAT
1 AATAATAA-AAAAT
3011941 AATAATTAAAAAAT
1 AATAA-TAAAAAAT
3011955 AATA
1 AATA
3011959 TTGCAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 6 0.22
13 1 0.04
14 17 0.63
15 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
AATAATAAAAAAT
Found at i:3011968 original size:12 final size:12
Alignment explanation
Indices: 3011951--3011981 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
3011941 AATAATTAAA
3011951 AAATAATATTGC
1 AAATAATATTGC
3011963 AAATAATATTGC
1 AAATAATATTGC
3011975 AAATAAT
1 AAATAAT
3011982 GATTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (12 bp):
AAATAATATTGC
Found at i:3013300 original size:3 final size:3
Alignment explanation
Indices: 3013292--3013339 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
3013282 TATATATATT
* * *
3013292 TAA TAA TAAA TAA TAA TAA TAA TATA TTA TAT TAA TAA TAA TTA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
3013339 T
1 T
3013340 TATTATTATG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
3 32 0.86
4 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:3013330 original size:22 final size:22
Alignment explanation
Indices: 3013302--3013347 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
3013292 TAATAATAAA
3013302 TAATAATAATAATATATTA-TAT
1 TAATAATAATAATA-ATTATTAT
*
3013324 TAATAATAATTATAATTATTAT
1 TAATAATAATAATAATTATTAT
3013346 TA
1 TA
3013348 TGAAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAATAATAATAATTATTAT
Found at i:3013341 original size:16 final size:16
Alignment explanation
Indices: 3013286--3013341 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
3013276 AATATATATA
*
3013286 TATATTTAATAATAAAT
1 TATAATTAATAAT-AAT
*
3013303 AATAA-TAATAATATAT
1 TATAATTAATAATA-AT
3013319 TAT-ATTAATAATAAT
1 TATAATTAATAATAAT
3013334 TATAATTA
1 TATAATTA
3013342 TTATTATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 7 0.21
16 23 0.70
17 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAATAATAAT
Found at i:3013609 original size:76 final size:76
Alignment explanation
Indices: 3013464--3014028 Score: 952
Period size: 76 Copynumber: 7.4 Consensus size: 76
3013454 GATGAAAATG
* * * * * * *
3013464 TTTGAAAACATCATGCACTGAAGGGCTTATAGATAACCCAAAGGTTTTTTTGAAAACATCAAAAA
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG---CTTTGAAAACATCAAAAA
3013529 GCTCCCGAAGGCTT
63 GCTCCCGAAGGCTT
*
3013543 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3013608 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
3013619 TTTGGAAACATCATGCACTGTTGGACTTACAGATGACCCGAAGGC-TTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3013683 CCCGAAGGCTT
66 CCCGAAGGCTT
*
3013694 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAATATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3013759 CCCGAAGGCTT
66 CCCGAAGGCTT
*
3013770 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
*
3013835 CCCGAAGGATT
66 CCCGAAGGCTT
3013846 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3013911 CCCGAAGGCTT
66 CCCGAAGGCTT
*
3013922 TTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
3013987 CCCGAAGGCTT
66 CCCGAAGGCTT
* *
3013998 TTTGGAAACATCATGCACTGCAGGTCTTACA
1 TTTGGAAACATCATGCACTGTAGGACTTACA
3014029 CATGTGGGAA
Statistics
Matches: 466, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
75 73 0.16
76 355 0.76
79 38 0.08
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:3014909 original size:21 final size:22
Alignment explanation
Indices: 3014874--3014927 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
3014864 CATAAAGCTT
3014874 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3014896 TCATCTTT-AAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
3014917 TCATCTTTGAA
1 TCATCTTTGAA
3014928 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:3017740 original size:114 final size:114
Alignment explanation
Indices: 3017540--3017759 Score: 395
Period size: 114 Copynumber: 1.9 Consensus size: 114
3017530 GATCATGCAG
* * *
3017540 TTCATCTTCCTAATCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
3017605 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
3017654 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
3017719 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
3017760 CGAGAACGTG
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (114 bp):
TTCATCTTCCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:3019932 original size:30 final size:30
Alignment explanation
Indices: 3019891--3020009 Score: 107
Period size: 30 Copynumber: 3.8 Consensus size: 30
3019881 TTTTTCTTTT
*
3019891 TTTTTCTTTTTTTTTCTTTTTTCTTTTTTCT
1 TTTTTCTTTTTTCTT-TTTTTTCTTTTTTCT
* **
3019922 TTTTTCTTTTTCCTTTTTCATCTTTTTTCT
1 TTTTTCTTTTTTCTTTTTTTTCTTTTTTCT
* * *
3019952 TTTTACTTTTTT-TTTTCTTTCTTTCTTCT
1 TTTTTCTTTTTTCTTTTTTTTCTTTTTTCT
3019981 TTCTTTGCTGGATTTTTC-TTTTTTTCTTT
1 TT-TTT-CT---TTTTTCTTTTTTTTCTTT
3020010 CTTTGTTGGA
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
29 15 0.21
30 25 0.36
31 15 0.21
34 15 0.21
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.79
Consensus pattern (30 bp):
TTTTTCTTTTTTCTTTTTTTTCTTTTTTCT
Found at i:3019946 original size:37 final size:36
Alignment explanation
Indices: 3019878--3019967 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 36
3019868 AATTTTCCTC
* * **
3019878 CTTTTTT-TCTTTTTTTTTCTTTTTTTTTCTTTTTT
1 CTTTTTTCTTTTTTTTTTTCCTTTTTCATCTTTTTT
3019913 CTTTTTTCTTTTTTCTTTTTCCTTTTTCATCTTTTTT
1 CTTTTTTCTTTTTT-TTTTTCCTTTTTCATCTTTTTT
*
3019950 CTTTTTACTTTTTTTTTT
1 CTTTTTTCTTTTTTTTTT
3019968 CTTTCTTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
35 7 0.15
36 9 0.19
37 32 0.67
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (36 bp):
CTTTTTTCTTTTTTTTTTTCCTTTTTCATCTTTTTT
Found at i:3019949 original size:1 final size:1
Alignment explanation
Indices: 3019879--3019932 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
3019869 ATTTTCCTCC
* * * * * *
3019879 TTTTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3019933 CCTTTTTCAT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:3020004 original size:7 final size:7
Alignment explanation
Indices: 3019880--3019982 Score: 120
Period size: 7 Copynumber: 14.4 Consensus size: 7
3019870 TTTTCCTCCT
3019880 TTTTTTC
1 TTTTTTC
3019887 TTTTTT-
1 TTTTTTC
3019893 TTTCTTT-
1 TTT-TTTC
3019900 TTTTTTC
1 TTTTTTC
3019907 TTTTTTC
1 TTTTTTC
3019914 TTTTTTC
1 TTTTTTC
3019921 TTTTTTC
1 TTTTTTC
*
3019928 TTTTTCC
1 TTTTTTC
3019935 TTTTTCATC
1 TTTTT--TC
3019944 TTTTTTC
1 TTTTTTC
*
3019951 TTTTTAC
1 TTTTTTC
*
3019958 TTTTTTT
1 TTTTTTC
3019965 TTTCTTTC
1 TTT-TTTC
*
3019973 TTTCTTC
1 TTTTTTC
3019980 TTT
1 TTT
3019983 CTTTGCTGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
6 6 0.07
7 66 0.79
8 6 0.07
9 6 0.07
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:3020004 original size:56 final size:53
Alignment explanation
Indices: 3019889--3020009 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 53
3019879 TTTTTTTCTT
* * *
3019889 TTTTTTTCTTTTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTCCTTTTTCA
1 TTTTTTTCTTTTTTTTTCTTTTTTCTTTTTTCTTCTTTCTTTTGCATTTTTCA
*
3019942 TCTTTTTTCTTTTTACTTTT-TTTTTTCTTTCTTTCTTCTTTCTTTGCTGGATTTTTC-
1 T-TTTTTTCTTTTT--TTTTCTTTTTTCTTT-TTTCTTCTTTCTTT--TGCATTTTTCA
3019999 TTTTTTTCTTT
1 TTTTTTTCTTT
3020010 CTTTGTTGGA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
53 1 0.02
54 12 0.21
55 10 0.17
56 27 0.47
57 1 0.02
58 7 0.12
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (53 bp):
TTTTTTTCTTTTTTTTTCTTTTTTCTTTTTTCTTCTTTCTTTTGCATTTTTCA
Found at i:3020019 original size:27 final size:30
Alignment explanation
Indices: 3019963--3020020 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 30
3019953 TTTACTTTTT
3019963 TTTTTCTTTCTTTCTTCTTTCTTTGCTGGA
1 TTTTTCTTTCTTTCTTCTTTCTTTGCTGGA
*
3019993 TTTTTC-TT-TTT-TTCTTTCTTTGTTGGA
1 TTTTTCTTTCTTTCTTCTTTCTTTGCTGGA
3020020 T
1 T
3020021 GAGTATAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 16 0.59
28 3 0.11
29 2 0.07
30 6 0.22
ACGTcount: A:0.03, C:0.16, G:0.10, T:0.71
Consensus pattern (30 bp):
TTTTTCTTTCTTTCTTCTTTCTTTGCTGGA
Found at i:3024594 original size:11 final size:12
Alignment explanation
Indices: 3024567--3024591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3024557 AACATGTATG
3024567 AAGAAAAAAAAT
1 AAGAAAAAAAAT
3024579 AAGAAAAAAAAT
1 AAGAAAAAAAAT
3024591 A
1 A
3024592 GAATAGTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAGAAAAAAAAT
Done.